miRNA display CGI


Results 1 - 20 of 49 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
18759 3' -53.5 NC_004683.1 + 4131 1.12 0.001326
Target:  5'- aCCGAGAACCGGAACGACAUGCCGUCGa -3'
miRNA:   3'- -GGCUCUUGGCCUUGCUGUACGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 28644 0.76 0.329712
Target:  5'- gCCGAGAcuuGgCGGcgcuCGGCGUGCCGUCu -3'
miRNA:   3'- -GGCUCU---UgGCCuu--GCUGUACGGCAGc -5'
18759 3' -53.5 NC_004683.1 + 24023 0.76 0.337714
Target:  5'- aCGAGcuuggccaggguGACCGGccCGACgAUGCCGUCGg -3'
miRNA:   3'- gGCUC------------UUGGCCuuGCUG-UACGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 5466 0.75 0.36256
Target:  5'- aCCGugggaucGAGCUGGAACGGCAccagguagccGCCGUCGg -3'
miRNA:   3'- -GGCu------CUUGGCCUUGCUGUa---------CGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 46602 0.75 0.388647
Target:  5'- gUCGAGGGCCGcGACGGCAagGCCGcCGc -3'
miRNA:   3'- -GGCUCUUGGCcUUGCUGUa-CGGCaGC- -5'
18759 3' -53.5 NC_004683.1 + 21614 0.74 0.415935
Target:  5'- gUGAGGgcgGCUGGGGCGGCAacuggGCCGUCu -3'
miRNA:   3'- gGCUCU---UGGCCUUGCUGUa----CGGCAGc -5'
18759 3' -53.5 NC_004683.1 + 30845 0.74 0.425289
Target:  5'- gCCGAcGGugcGCCGGugcgguCGACAgcgGCCGUCGa -3'
miRNA:   3'- -GGCU-CU---UGGCCuu----GCUGUa--CGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 21170 0.73 0.463913
Target:  5'- gCCGAcgguGAACCGGuaccGCGGaaacCAUGCCGUCc -3'
miRNA:   3'- -GGCU----CUUGGCCu---UGCU----GUACGGCAGc -5'
18759 3' -53.5 NC_004683.1 + 4020 0.71 0.555685
Target:  5'- uUCGAGAcgccaucGCCGGuaaggccaucGACGGCAUGUCGUUc -3'
miRNA:   3'- -GGCUCU-------UGGCC----------UUGCUGUACGGCAGc -5'
18759 3' -53.5 NC_004683.1 + 48955 0.71 0.567447
Target:  5'- aUCGAGAACCGGAcccGCaACAUcGCCGg-- -3'
miRNA:   3'- -GGCUCUUGGCCU---UGcUGUA-CGGCagc -5'
18759 3' -53.5 NC_004683.1 + 18897 0.71 0.567448
Target:  5'- cCCGAGAuaaACgCGGugaugAACGGCAgaucgaugcccuUGCCGUCGu -3'
miRNA:   3'- -GGCUCU---UG-GCC-----UUGCUGU------------ACGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 1646 0.71 0.593312
Target:  5'- gCGGGccGCCGGGACGAUuccaacguggaucuUGCCGUCc -3'
miRNA:   3'- gGCUCu-UGGCCUUGCUGu-------------ACGGCAGc -5'
18759 3' -53.5 NC_004683.1 + 45787 0.71 0.610664
Target:  5'- aUCGAGAuccCCGGcGugGAgGUGCgCGUCGc -3'
miRNA:   3'- -GGCUCUu--GGCC-UugCUgUACG-GCAGC- -5'
18759 3' -53.5 NC_004683.1 + 13247 0.71 0.610664
Target:  5'- cCCGucGACCGcauCGGCGUcGCCGUCGa -3'
miRNA:   3'- -GGCucUUGGCcuuGCUGUA-CGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 2998 0.7 0.665017
Target:  5'- gCGcAGGAUCGGcgucagccACGACAUGCCG-CGa -3'
miRNA:   3'- gGC-UCUUGGCCu-------UGCUGUACGGCaGC- -5'
18759 3' -53.5 NC_004683.1 + 13020 0.7 0.665017
Target:  5'- aCCGGccACCGGuGgGGCG-GCCGUCGa -3'
miRNA:   3'- -GGCUcuUGGCCuUgCUGUaCGGCAGC- -5'
18759 3' -53.5 NC_004683.1 + 19652 0.7 0.665017
Target:  5'- gCCGAGGACgGGuucAACGAC--GCCGcCGa -3'
miRNA:   3'- -GGCUCUUGgCC---UUGCUGuaCGGCaGC- -5'
18759 3' -53.5 NC_004683.1 + 43125 0.69 0.675837
Target:  5'- cCCGAG-ACCGGcguGCGGCugcgugGCCGgaUCGa -3'
miRNA:   3'- -GGCUCuUGGCCu--UGCUGua----CGGC--AGC- -5'
18759 3' -53.5 NC_004683.1 + 51015 0.69 0.675837
Target:  5'- cCCGAGGGCUGGAugcccgACGACGagacgaucGCCG-CGa -3'
miRNA:   3'- -GGCUCUUGGCCU------UGCUGUa-------CGGCaGC- -5'
18759 3' -53.5 NC_004683.1 + 12232 0.69 0.686616
Target:  5'- gCCG-GGGCgGGAGCGcccgGCGUGCCGa-- -3'
miRNA:   3'- -GGCuCUUGgCCUUGC----UGUACGGCagc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.